RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11630
(169 letters)
>gnl|CDD|225180 COG2271, UhpC, Sugar phosphate permease [Carbohydrate transport and
metabolism].
Length = 448
Score = 38.0 bits (89), Expect = 0.001
Identities = 31/136 (22%), Positives = 49/136 (36%), Gaps = 32/136 (23%)
Query: 25 LFIYQLLGATSLTMSIVLLLLLGSLVNGPYALITTAVSAELGTHECLEGNSKALATVTSI 84
L +Y L S + +LL ++G L+ GP LI A AE KA T T
Sbjct: 335 LVLYWLAPNGSYLLDAILLFIIGFLIYGPQMLIGLAA-AEFVP-------KKAAGTATGF 386
Query: 85 IDGTGSIASLSNTLSGDLATVFDIGGIFGGIAAGLISDMTGKS--------ASVCATMLV 136
+ + IG G+ G I+D G A++ A +L+
Sbjct: 387 VGLFAYL----------------IGAALAGLPLGYIADTWGWDGGFIVLSIAALLAILLL 430
Query: 137 LSIPMKQKGNQEAEQD 152
L + ++ E+
Sbjct: 431 LPVWNAEERKIRDEKK 446
Score = 28.8 bits (65), Expect = 1.4
Identities = 10/41 (24%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 104 TVFDIGGIFGGIAAGLISD-----MTGKSASVCATMLVLSI 139
++F++ G+ G + AG +SD G A + ++ S+
Sbjct: 295 SLFEVAGLPGTLLAGWLSDKLFKGRRGPMALIFMLLITASL 335
>gnl|CDD|233167 TIGR00881, 2A0104, phosphoglycerate transporter family protein.
[Transport and binding proteins, Carbohydrates, organic
alcohols, and acids].
Length = 379
Score = 37.0 bits (86), Expect = 0.002
Identities = 26/89 (29%), Positives = 33/89 (37%), Gaps = 9/89 (10%)
Query: 25 LFIYQLLGATSLTMSIVLLLLLGSLVNGPYALITTAVSAELGTHECLEGNSKALATVTSI 84
L +Y L A + M ++ L LG LV GP LI S E KA T
Sbjct: 299 LLVYWLNPAANPLMDLICLFALGFLVYGPQMLIGVIAS------EL--APKKAAGTAAGF 350
Query: 85 IDGTGSI-ASLSNTLSGDLATVFDIGGIF 112
+ + L+ G LA F G F
Sbjct: 351 VGFFAYLGGILAGLPLGYLADGFGWAGAF 379
>gnl|CDD|233165 TIGR00879, SP, MFS transporter, sugar porter (SP) family. This
model represent the sugar porter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 481
Score = 32.7 bits (75), Expect = 0.085
Identities = 21/108 (19%), Positives = 40/108 (37%), Gaps = 9/108 (8%)
Query: 39 SIVLLLLLGSLVNGPYALITTAVSAELGTHECLEGNSKAL--ATVTSIID----GTGSIA 92
S +L+ G +S + G + + + +
Sbjct: 10 SELLVTPAGLGSTYWKV---ALLSLIAAIGGLMFGYDTGVIGGALALPAFEFKFTSANSD 66
Query: 93 SLSNTLSGDLATVFDIGGIFGGIAAGLISDMTGKSASVCATMLVLSIP 140
S S++L G + ++F +GG G + AG +SD G+ S+ L+ I
Sbjct: 67 SYSSSLWGLVVSIFLVGGFIGALFAGWLSDRFGRKKSLLIIALLFVIG 114
>gnl|CDD|227619 COG5302, COG5302, Post-segregation antitoxin (ccd killing
mechanism protein) encoded by the F plasmid [General
function prediction only].
Length = 80
Score = 30.3 bits (68), Expect = 0.12
Identities = 22/88 (25%), Positives = 33/88 (37%), Gaps = 20/88 (22%)
Query: 10 TSRSKVQRV--NHYTTELFIYQLLGATSLTMSIVLLLLLGSLVNGPYALITTAVSAELGT 67
SR Q V + T + + + A L +S AL TA++AEL
Sbjct: 2 LSRRTKQIVTAANVTVDDELLERARALGLNIS---------------ALAETAIAAELRK 46
Query: 68 HEC---LEGNSKALATVTSIIDGTGSIA 92
E N++A+AT +D G
Sbjct: 47 SATDRWQEENAEAIATGNRFVDVNGLFL 74
>gnl|CDD|215702 pfam00083, Sugar_tr, Sugar (and other) transporter.
Length = 449
Score = 30.0 bits (68), Expect = 0.63
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 94 LSNTLSGDLATVFDIGGIFGGIAAGLISDMTG--KSASVCATMLVLSI 139
S LSG + ++F +G + G + AG + D G KS + + V+
Sbjct: 43 ASTVLSGLIVSIFSVGCLIGSLFAGKLGDRFGRKKSLLIGNVLFVIGA 90
>gnl|CDD|236564 PRK09556, uhpT, sugar phosphate antiporter; Reviewed.
Length = 467
Score = 30.0 bits (68), Expect = 0.64
Identities = 17/37 (45%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 25 LFIYQLLGATSLTMSIVLLLLLGSLVNGPYALITTAV 61
L +YQ ATS M + L LG LV GP LI A
Sbjct: 340 LGVYQ--HATSEYMYLASLFALGFLVFGPQLLIGVAA 374
>gnl|CDD|183813 PRK12887, ubiA, tocopherol phytyltransferase; Reviewed.
Length = 308
Score = 28.0 bits (63), Expect = 2.1
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 42 LLLLLGSLVNGPYALITTAVSAELGT 67
+L L+ + + GP+ LIT +S +GT
Sbjct: 109 ILALILAALLGPWLLITVGISLLIGT 134
>gnl|CDD|233161 TIGR00870, trp, transient-receptor-potential calcium channel
protein. The Transient Receptor Potential Ca2+ Channel
(TRP-CC) Family (TC. 1.A.4)The TRP-CC family has also
been called the store-operated calcium channel (SOC)
family. The prototypical members include the Drosophila
retinal proteinsTRP and TRPL (Montell and Rubin, 1989;
Hardie and Minke, 1993). SOC members of the family
mediate the entry of extracellular Ca2+ into cells in
responseto depletion of intracellular Ca2+ stores
(Clapham, 1996) and agonist stimulated production of
inositol-1,4,5 trisphosphate (IP3). One member of the
TRP-CCfamily, mammalian Htrp3, has been shown to form a
tight complex with the IP3 receptor (TC #1.A.3.2.1).
This interaction is apparently required for IP3
tostimulate Ca2+ release via Htrp3. The vanilloid
receptor subtype 1 (VR1), which is the receptor for
capsaicin (the ?hot? ingredient in chili peppers) and
servesas a heat-activated ion channel in the pain
pathway (Caterina et al., 1997), is also a member of
this family. The stretch-inhibitable non-selective
cation channel(SIC) is identical to the vanilloid
receptor throughout all of its first 700 residues, but
it exhibits a different sequence in its last 100
residues. VR1 and SICtransport monovalent cations as
well as Ca2+. VR1 is about 10x more permeable to Ca2+
than to monovalent ions. Ca2+ overload probably causes
cell deathafter chronic exposure to capsaicin.
(McCleskey and Gold, 1999) [Transport and binding
proteins, Cations and iron carrying compounds].
Length = 743
Score = 27.7 bits (62), Expect = 3.8
Identities = 14/40 (35%), Positives = 21/40 (52%)
Query: 20 HYTTELFIYQLLGATSLTMSIVLLLLLGSLVNGPYALITT 59
H TE L GA ++ M I+LL +L +++ Y LI
Sbjct: 581 HKFTEFVGLLLFGAYNVIMYILLLNMLIAMMGNTYQLIAD 620
>gnl|CDD|119392 cd06174, MFS, The Major Facilitator Superfamily (MFS) is a large
and diverse group of secondary transporters that
includes uniporters, symporters, and antiporters. MFS
proteins facilitate the transport across cytoplasmic or
internal membranes of a variety of substrates including
ions, sugar phosphates, drugs, neurotransmitters,
nucleosides, amino acids, and peptides. They do so using
the electrochemical potential of the transported
substrates. Uniporters transport a single substrate,
while symporters and antiporters transport two
substrates in the same or in opposite directions,
respectively, across membranes. MFS proteins are
typically 400 to 600 amino acids in length, and the
majority contain 12 transmembrane alpha helices (TMs)
connected by hydrophilic loops. The N- and C-terminal
halves of these proteins display weak similarity and may
be the result of a gene duplication/fusion event. Based
on kinetic studies and the structures of a few bacterial
superfamily members, GlpT (glycerol-3-phosphate
transporter), LacY (lactose permease), and EmrD
(multidrug transporter), MFS proteins are thought to
function through a single substrate binding site,
alternating-access mechanism involving a rocker-switch
type of movement. Bacterial members function primarily
for nutrient uptake, and as drug-efflux pumps to confer
antibiotic resistance. Some MFS proteins have medical
significance in humans such as the glucose transporter
Glut4, which is impaired in type II diabetes, and
glucose-6-phosphate transporter (G6PT), which causes
glycogen storage disease when mutated.
Length = 352
Score = 27.3 bits (61), Expect = 4.1
Identities = 25/114 (21%), Positives = 40/114 (35%), Gaps = 27/114 (23%)
Query: 30 LLGATSLTMSIVLLLLLGSLVNGPYALITTAVSAELGTHECLEGNSKALATVTSIIDGTG 89
L A SL + +V LLLLG + + + T S A T + +
Sbjct: 259 LALAPSLALLLVALLLLGFGLGFAFPALLTLASELAPPE--------ARGTASGLF---- 306
Query: 90 SIASLSNTLSGDLATVFDIGGIFGGIAAGLISDMTGKSAS--VCATMLVLSIPM 141
T +GG G + AGL+ D G + A + +L+ +
Sbjct: 307 -------------NTFGSLGGALGPLLAGLLLDTGGYGGVFLILAALALLAALL 347
Score = 26.5 bits (59), Expect = 8.1
Identities = 12/47 (25%), Positives = 25/47 (53%)
Query: 93 SLSNTLSGDLATVFDIGGIFGGIAAGLISDMTGKSASVCATMLVLSI 139
LS + +G + + F +G G + AG +SD G+ + +L+ ++
Sbjct: 30 GLSASQAGLIVSAFSLGYALGSLLAGYLSDRFGRRRVLLLGLLLFAL 76
Score = 26.5 bits (59), Expect = 8.5
Identities = 15/54 (27%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 89 GSIASLSNTLSGDLATVFDIGGIFGGIAAGLISDMTG-KSASVCATMLVLSIPM 141
+ LS +G L ++F +GGI G + GL+SD G + + +L+ ++ +
Sbjct: 203 QEVLGLSAAEAGLLLSLFGLGGILGALLGGLLSDRLGRRRLLLLIGLLLAALGL 256
>gnl|CDD|233171 TIGR00890, 2A0111, oxalate/formate antiporter family transporter.
This subfamily belongs to the major facilitator family.
Members include the oxalate/formate antiporter of
Oxalobacter formigenes, where one substrate is
decarboxylated in the cytosol into the other to consume
a proton and drive an ion gradient [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 377
Score = 27.0 bits (60), Expect = 5.5
Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 100 GDLATVFDIGGIFGGIAAGLISDMTGKSAS--VCATMLVLS 138
G L T + GIFGG+ A G + V + S
Sbjct: 334 GFLYTAKAVAGIFGGLIASHALTEIGFEYTFIVTGAFALTS 374
>gnl|CDD|191610 pfam06799, DUF1230, Protein of unknown function (DUF1230). This
family consists of several hypothetical plant and
photosynthetic bacterial proteins of around 160
residues in length. The function of this family is
unknown although looking at the species distribution
the protein may play a part in photosynthesis.
Length = 145
Score = 26.4 bits (59), Expect = 5.7
Identities = 9/29 (31%), Positives = 13/29 (44%)
Query: 19 NHYTTELFIYQLLGATSLTMSIVLLLLLG 47
L + LGA + + I+L L LG
Sbjct: 58 RKSPLRLILSAALGALLIPLLILLRLYLG 86
>gnl|CDD|236168 PRK08156, PRK08156, type III secretion system protein SpaS;
Validated.
Length = 361
Score = 26.5 bits (59), Expect = 6.8
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 147 QEAEQDYKEHEANPE 161
QE +++YKE E NPE
Sbjct: 213 QEVKREYKEQEGNPE 227
>gnl|CDD|224316 COG1398, OLE1, Fatty-acid desaturase [Lipid metabolism].
Length = 289
Score = 26.6 bits (59), Expect = 7.4
Identities = 11/41 (26%), Positives = 20/41 (48%)
Query: 12 RSKVQRVNHYTTELFIYQLLGATSLTMSIVLLLLLGSLVNG 52
R +Q++ + ++ L +L M IVL L +G + G
Sbjct: 143 RETIQKLGKDIPLDWQHRNLYLIALLMQIVLPLFIGYALGG 183
>gnl|CDD|240604 cd12921, VKOR_4, Vitamin K epoxide reductase (VKOR) family in
bacteria. This family includes vitamin K epoxide
reductase (VKOR) present only in bacteria. VKOR (also
named VKORC1) is an integral membrane protein that
catalyzes the reduction of vitamin K 2,3-epoxide and
vitamin K to vitamin K hydroquinone, an essential
co-factor subsequently used in the gamma-carboxylation
of glutamic acid residues in blood coagulation enzymes.
All homologs of VKOR contain an active site CXXC motif,
which is switched between reduced and disulfide-bonded
states during the reaction cycle. In some bacterial
homologs, the VKOR domain is fused with domains of the
thioredoxin family of oxidoreductases which may function
as redox partners in initiating the reduction cascade.
This family also has a cysteine peptidase domain present
at the N-terminus of the VKOR domain.
Length = 128
Score = 25.7 bits (57), Expect = 8.2
Identities = 20/92 (21%), Positives = 38/92 (41%), Gaps = 12/92 (13%)
Query: 56 LITTAVSAELGTHECLEGNSKALATVTSIIDGTGSIASLSNTLSGDLATVF-----DIGG 110
LI +S L E L ++K L SI G + L A + ++G
Sbjct: 8 LIGLLISILLLLKE-LGKSNKILKKFCSI----GKKVDCNAVLKSKGAKIGGISLSELGL 62
Query: 111 IF--GGIAAGLISDMTGKSASVCATMLVLSIP 140
++ G + L+S + + + +L+L++P
Sbjct: 63 LYFFGLLLLLLLSPLNSSLLFLLSLLLLLALP 94
>gnl|CDD|212060 cd11491, SLC5sbd_SMIT, Na(+)/myo-inositol cotransporter SMIT and
related proteins; solute-binding domain. Human SMIT is
a high-affinity myo-inositol transporter, and is
expressed in brain, heart, kidney, and lung. Inhibition
of myo-inositol uptake, through down-regulation of SMIT,
may be a common mechanism of action of mood stabilizers,
including lithium, carbamazepine, and valproate. SMIT is
encoded by the SLC5A3 gene, which is a candidate gene
for pathogenesis of nervous system dysfunction in Down
syndrome (DS). The SNP, 21q22 near SLC5A3-MRPS6-KCNE2,
has been associated with coronary heart disease,
cardiovascular disease, and myocardial infarction. SMIT
may also be involved in the pathogeneisis of congenital
cataract. SMIT also plays roles in osteogenesis, bone
formation, and bone mineral density determination. This
subgroup belongs to the solute carrier 5 (SLC5)
transporter family.
Length = 600
Score = 26.7 bits (59), Expect = 8.6
Identities = 19/45 (42%), Positives = 28/45 (62%), Gaps = 4/45 (8%)
Query: 18 VNHYTTELFIYQLLGATSLTMSIVLLLLLGSLVN---GPYALITT 59
VN Y+ LFI + LG +L +SI+LL+ L +L+ G A+I T
Sbjct: 133 VNLYSGALFIQESLG-WNLYVSIILLIGLTALLTVTGGLAAVIYT 176
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.313 0.130 0.355
Gapped
Lambda K H
0.267 0.0697 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,985,829
Number of extensions: 708375
Number of successful extensions: 736
Number of sequences better than 10.0: 1
Number of HSP's gapped: 732
Number of HSP's successfully gapped: 49
Length of query: 169
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 79
Effective length of database: 6,945,742
Effective search space: 548713618
Effective search space used: 548713618
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.0 bits)